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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTATCTATGAAAAACTGCCCCGTGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgaccttaatcttctgaccctctagaccagacccgtccattccaggcttttgtggtttactggactggtttctgaatcaaacctcaatatgtcttatcccttgtgttgaaatattgttgtcattctaatgctccaattacatgctaagaatccacggatgtattccttattgtag

Basic information

species Physcomitrella patens
transcript PP1S83_234V6.2
intron # 13
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|162247261|gb|FC423059.1|FC423059
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162250016|gb|FC427117.1|FC427117
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|18338563|gb|BJ170587.1|BJ170587
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|37826149|gb|BJ584161.1|BJ584161
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162154986|gb|FC331404.1|FC331404
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCGTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162159567|gb|FC335745.1|FC335745
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162250017|gb|FC427118.1|FC427118
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162247262|gb|FC423060.1|FC423060
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162159566|gb|FC335744.1|FC335744
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|37837126|gb|BJ595134.1|BJ595134
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 28 (upstream exon), 34 (downstream exon)
Score: 3

CTTATCTATGAAAAACTGCCCCGTGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTGAGTCTCATATAATATTTTTGAACCTTATATCG




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